Re: [moose-generic] MOOSE_installation_problem

[Subhasis R. <ray...@gm...>]

Dear Vadim,
  I would recommend that you avoid the MPI build at this point. The errors
again are due to a minor issue with HDF5 library that can vary from package
to package. These functions were introduced in HDF5 1.8.0. Either you need
the same or a newer version installed. Otherwise, you can skip HDF5 support
(which is somewhat experimental anyways) altogether by passing USE_HDF5=0
to "make" command.
  Hope this helps,
    Subha


On Sat, Mar 2, 2013 at 5:35 AM, Vadim A <ast...@nc...> wrote:

> Dear Subha.
>
> I set CXXFLAG to include mpi.h in "ifeq ($(BUILD),release)"
>
>
> like you've suggested  and it seems that it can find all libraries now but
> unfortunately
>
>
> make BUILD=release USE_MPI=1
>
>
> produce another error
>
>
> mpicxx -O3 -pthread -fpermissive -fno-strict-aliasing -fPIC -Wall
> -Wno-long-long -pedantic -DNDEBUG -DUSE_GENESIS_PARSER -I
> /home/diag/opt/openmpi/1.4.3/gnu/include  -DSVN_REVISION=\"4401M\" -DLINUX
> -DUSE_MPI -DMPICH_IGNORE_CXX_SEEK -DUSE_GSL -I
> /home/diag/opt/gsl/1.15/gnu/include/    -DUSE_HDF5
>  -DH5_NO_DEPRECATED_SYMBOLS -I  /home/diag/opt/hdf5/1.6/gnu/include  -I.
> -I../basecode -I../msg HDF5DataWriter.cpp -c
>
>
>
>
> ../basecode/Conv.h:1009: warning: converting to 'unsigned int' from 'const
> double'
> HDF5DataWriter.cpp: In member function 'hid_t
> HDF5DataWriter::get_dataset(std::string)':
> HDF5DataWriter.cpp:222: error: 'H5Gcreate2' was not declared in this scope
> HDF5DataWriter.cpp:225: error: 'H5Gopen2' was not declared in this scope
> HDF5DataWriter.cpp:258: error: 'H5Dopen2' was not declared in this scope
>
>
>
>
>
> HDF5  and openmpi  libraries included. Do I still missing something ?
>
> Thanks a lot in advance for any comments.
>
> Vadim.
>
>
>
>
>
> On Feb 28, 2013, at 7:37 PM, Subhasis Ray wrote:
>
>
>
>
> Do not enable MPI unless you want to try the parallel version. To enable
> MPI, you have to pass the argument "USE_MPI=1" to make command.
>
>
>>
>>
>> # Here we automagically change compilers to deal with MPI.
>> ifdef USE_MPI
>>         CXX = mpicxx
>> #       CXX = /usr/local/mvapich2/bin/mpicxx
>>         PARALLEL_DIR = /home/diag/opt/openmpi/1.4.3/gnu/  #parallel
>>         PARALLEL_LIB = /home/diag/opt/openmpi/1.4.3/gnu/lib/
>> #parallel/parallel.o
>> else
>>         CXX = g++
>> #       CXX = CC        # Choose between Solaris CC and g++ on a Solaris
>> machine
>> endif
>>
>>
>>
> In the above, the PARALLEL_DIR and PARALLEL_LIB are MOOSE source directory
> and object file for the parallel version. They are not to be modified.
>
>>
>>
>>
>> We are using "openmpi" which does not have "parallel.o"
>>
>
> As mentioned above, parallel.o will be generated by the build process. It
> looks like your version of hdf5 includes mpi.h and the compiler cannot find
> it. So you have to add -I{location of mpi.h} to the CXXFLAGS variable
> somewhere.Depending on your build type, you can append this to the CXXFLAG
> assignment under :
>
> ifeq ($(BUILD),debug)
>
> and/or under
>
> ifeq ($(BUILD),release)
>
>
> Best,
>   Subha
>
>
>